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    UTP23 rRNA-binding ribosome biosynthesis protein UTP23 [ Saccharomyces cerevisiae S288C ]

    Gene ID: 854165, updated on 4-Aug-2024

    Summary

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    Gene symbol
    UTP23
    Gene description
    rRNA-binding ribosome biosynthesis protein UTP23
    Primary source
    FungiDB:YOR004W
    Locus tag
    YOR004W
    See related
    SGD:S000005530; AllianceGenome:SGD:S000005530; VEuPathDB:YOR004W
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Saccharomyces cerevisiae S288C (strain: S288C)
    Lineage
    Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes; Saccharomycetales; Saccharomycetaceae; Saccharomyces
    Summary
    Enables small ribosomal subunit rRNA binding activity. Involved in endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); and endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA). Located in nucleolus. Part of small-subunit processome. Human ortholog(s) of this gene implicated in colorectal adenocarcinoma. Orthologous to human UTP23 (UTP23 small subunit processome component). [provided by Alliance of Genome Resources, Apr 2022]
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    Genomic context

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    See UTP23 in Genome Data Viewer
    Location:
    chromosome: XV
    Exon count:
    1
    Sequence:
    Chromosome: XV; NC_001147.6 (333592..334356)

    Chromosome XV - NC_001147.6Genomic Context describing neighboring genes Neighboring gene dolichyl-P-Glc:Man(9)GlcNAc(2)-PP-dolichol alpha-1,3-glucosyltransferase Neighboring gene putative subtilisin-like protease YSP3 Neighboring gene DNA ligase (ATP) DNL4 Neighboring gene ribosome biogenesis protein TSR3

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_001147.6

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Structural and functional analysis of Utp23, a yeast ribosome synthesis factor with degenerate PIN domain. Lu J, et al. RNA, 2013 Dec. PMID 24152547, Free PMC Article
    2. Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters. Wu LF, et al. Nat Genet, 2002 Jul. PMID 12089522
    3. Synergistic interaction network between the snR30 RNP, Utp23, and ribosomal RNA during ribosome synthesis. Vos TJ, et al. RNA Biol, 2022 Jan. PMID 35648701, Free PMC Article
    4. The PINc domain protein Utp24, a putative nuclease, is required for the early cleavage steps in 18S rRNA maturation. Bleichert F, et al. Proc Natl Acad Sci U S A, 2006 Jun 20. PMID 16769905, Free PMC Article
    5. Utp23p is required for dissociation of snR30 small nucleolar RNP from preribosomal particles. Hoareau-Aveilla C, et al. Nucleic Acids Res, 2012 Apr. PMID 22180534, Free PMC Article

    See all (43) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Synergistic interaction network between the snR30 RNP, Utp23, and ribosomal RNA during ribosome synthesis.
      Title: Synergistic interaction network between the snR30 RNP, Utp23, and ribosomal RNA during ribosome synthesis.
    2. yUtp23/hUTP23 could therefore be central to the coordinated integration and release of ES6 binding factors and likely plays a pivotal role in remodeling this pre-rRNA region in both yeast and humans. Finally, studies using RNAi-rescue systems in human cells revealed that intact PIN domain and Zinc finger motifs in human hUTP23 are essential for 18S rRNA maturation.
      Title: The ribosome biogenesis factor yUtp23/hUTP23 coordinates key interactions in the yeast and human pre-40S particle and hUTP23 contains an essential PIN domain.
    3. The Zn-finger motif is required for Utp23 structure or function.
      Title: Structural and functional analysis of Utp23, a yeast ribosome synthesis factor with degenerate PIN domain.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by SGD

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables small ribosomal subunit rRNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables small ribosomal subunit rRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables small ribosomal subunit rRNA binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables zinc ion binding RCA
    inferred from Reviewed Computational Analysis
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA) IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ribosome biogenesis IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus HDA PubMed 
    is_active_in nucleolus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleolus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of small-subunit processome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of small-subunit processome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of small-subunit processome IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of small-subunit processome IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    rRNA-binding ribosome biosynthesis protein UTP23
    NP_014646.1
    • Component of the small subunit processome; involved in 40S ribosomal subunit biogenesis; interacts with snR30 and is required for dissociation of snR30 from large pre-ribosomal particles; has homology to PINc domain protein Fcf1p, although the PINc domain of Utp23p is not required for function; essential protein

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_001147.6 Reference assembly

      Range
      333592..334356
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001183423.1 → NP_014646.1  TPA: rRNA-binding ribosome biosynthesis protein UTP23 [Saccharomyces cerevisiae S288C]

      See identical proteins and their annotated locations for NP_014646.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      D6W270, Q12339
      UniProtKB/TrEMBL
      A6ZNK9, B3LJ59, B5VRQ6, C7GJU9, C8ZHW7, G2WMN4, N1NWE9
      Conserved Domains (1) summary
      cd09865
      Location:3 → 150
      PIN_ScUtp23p-like; VapC-like PIN domain of rRNA-processing protein, Utp23 (YOR004W), and other fungal homologs
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q12339.1

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